Origin IGS: taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaactgacaatatccacataagcaagacacactagcctacccacctctgctaaaactaaaaaatcagcaataaaaaaagagggacacgccatctaaacgatgtgttccctctttatatgaatagatttaatatgttcagaacaattcctta Mask Tandem Repeat Region ================================================ taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Find is-nt database================================================ Query_seq: PI0488:PI0489|PI0488:PI0489:conserved hypothetical protein:probable cardiolipin synthetase:->->:447598..447749 152 taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0488:PI0489|PI0488:PI0489:conserved hypothetical protein:probable cardiolipin synthetase:->->:447598..447749 152 taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0488:PI0489|PI0488:PI0489:conserved hypothetical protein:probable cardiolipin synthetase:->->:447598..447749 152 taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 60 End: 152 ........................................................... M A C P S F F I A D F L V L A E V G R L V C L A Y V D I V S L taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 91 HP_score: -5.6 Tail_Score: -5.84381 Start: 41 End: 73 Full_Region: ATCTATTCATATAAA GAGGGAACACATCGT TTAG ATGGCGTGTCCCTC TTTTTTTATTGCTGA ........................................GAGGGAACACATCGTTTAGATGGCGTGTCCCTC............................................................................... TransTerm Strand: - Conf: 61 HP_score: -4.3 Tail_Score: -4.06678 Start: 41 End: 73 Full_Region: tcagcaataaaaaaa gagggacacgccatc taaac gatgtgttccctc tttatatgaatagat ........................................gagggacacgccatctaaacgatgtgttccctc............................................................................... Find igs database================================================ Query_seq: PI0488:PI0489|PI0488:PI0489:conserved hypothetical protein:probable cardiolipin synthetase:->->:447598..447749 152 taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctctttttttattgctgattttttagttttagcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Intra-Species Hit: Count: 1 Min: 1 Max: 152 Len: 152 Subject: pint_PI0488_PI0489|conserved hypothetical protein:probable cardiolipin synthetase|POSITIVE:POSITIVE|[447598,447749]|152 HSP 1 e-value: 5.0E-34 bit: 145.0 Len: 73 Query Start:1 Query End:73 Subject Strand: POSITIVE Subject Start: 1 Subject End: 73 taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctc............................................................................... taaggaattgttctgaacatattaaatctattcatataaagagggaacacatcgtttagatggcgtgtccctc............................................................................... HSP 2 e-value: 2.0E-21 bit: 103.0 Len: 52 Query Start:101 Query End:152 Subject Strand: POSITIVE Subject Start: 101 Subject End: 152 ....................................................................................................agcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta ....................................................................................................agcagaggtgggtaggctagtgtgtcttgcttatgtggatattgtcagttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGAAUUGUUCUGAACAUAUUAAAUCUAUUCAUAUAAAGAGGGAACACAUCGUUUAGAUGGCGUGUCCCUCUUUUUUUAUUGCUGAUUUUUUAGUUUUAGCAGAGGUGGGUAGGCUAGUGUGUCUUGCUUAUGUGGAUAUUGUCAGUUUA ....((((((......((((((((..(((((((((..(((((((((.(((..(((....)))..)))))))))))).....(((((((..........)))))))..))))))))).)))))))).(..(....)..).......)))))). (-41.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUGACAAUAUCCACAUAAGCAAGACACACUAGCCUACCCACCUCUGCUAAAACUAAAAAAUCAGCAAUAAAAAAAGAGGGACACGCCAUCUAAACGAUGUGUUCCCUCUUUAUAUGAAUAGAUUUAAUAUGUUCAGAACAAUUCCUUA ....((((((...........((((.((..................)))))).........(((((....(((...(((((((((.((((.(((.....)))))))))))))))).))).....)))))....)).))))............ (-26.37) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 75 39 198 165 pint:PI1191|5end_phosphoribosyl_pyrophosphate_synthetase_1109464..1109694_POSITIVE 327 141 102 169 128 pint:PI1383|5end_biopolymer_transport_protein_tolQ_related_1304121..1304351_POSITIVE 319 148 101 226 182 pint:PI1228|5end_conserved_hypothetical_protein_1149045..1149275_POSITIVE 316 138 96 72 19 pint:PI2100|5end_conserved_hypothetical_protein_2053351..2053581_POSITIVE 316 139 104 112 68 pint:PI1968|5end_hypothetical_protein_1924378..1924608_POSITIVE 309 139 101 226 186 pint:PI1866|5end_hypothetical_protein_1811693..1811923_POSITIVE 305 148 102 228 176 pint:PI1528|5end_hypothetical_protein_1449685..1449915_POSITIVE 304 77 39 159 121 pint:PI0161|5end_possible_TonB_receptor_153364..153594_POSITIVE 293 130 81 205 157 pint:PI0223|5end_topoisomerase_IA_218377..218607_POSITIVE 289 149 101 211 145 pint:PI1163|5end_single-strand_DNA_binding_protein_1087757..1087987_POSITIVE 286 132 95 122 81 pint:PI1797|5end_hypothetical_protein_1731147..1731377_POSITIVE 282 141 101 45 4 pint:PI0047|5end_phosphomethylpyrimidine_kinase_45964..46194_POSITIVE 277 146 108 50 11 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 276 135 101 229 189 pint:PI1435|5end_D12_class_N6_adenine-specific_DNA_methyltransferase_1354559..1354789_POSITIVE 274 150 107 68 20 pint:PI0645|5end_hypothetical_protein_586419..586649_POSITIVE 273 148 101 163 106 pint:PI1166|5end_hypothetical_protein_1089305..1089535_POSITIVE 270 147 102 181 137 pint:PI2176|5end_conserved_hypothetical_protein_2116484..2116714_POSITIVE 270 145 107 229 184 pint:PI0646|5end_hypothetical_protein_586583..586813_POSITIVE 268 89 41 173 122 pint:PI1086|5end_pyruvate:ferredoxin_oxidoreductase_1006602..1006832_POSITIVE 267 88 43 169 115 pint:PI2099|5end_D-alanyl-D-alanine_dipeptidase_2052409..2052639_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 383 76 38 53 15 pint:PI0488|3end_conserved_hypothetical_protein_447537..447687_POSITIVE 329 150 102 149 99 pint:PI0201|3end_hypothetical_protein_195398..195548_POSITIVE 327 141 102 105 64 pint:PI1382|3end_hypothetical_protein_1304137..1304287_POSITIVE 319 148 101 75 31 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 316 139 104 95 51 pint:PI1967|3end_hypothetical_protein_1924441..1924591_POSITIVE 314 139 98 95 55 pint:PI1970|3end_hypothetical_protein_1927882..1928032_POSITIVE 290 139 102 40 1 pint:PI1865|3end_chromate_transport_protein_1811587..1811737_POSITIVE 289 149 101 126 60 pint:PI1162|3end_hemolysin-related_protein,_with_CBS_domain_1087752..1087902_POSITIVE 287 142 101 74 32 pint:PI1720|3end_conserved_hypothetical_protein_1637992..1638142_POSITIVE 283 79 39 53 13 pint:PI1370|3end_alkyl_hydroperoxide_reductase,_subunit_F_1292176..1292326_POSITIVE 282 141 101 45 4 pint:PI0046|3end_thiamine_monophosphate_synthase_(thiamine-phosphate_pyrophosphorylase)_46044..46194_POSITIVE 274 150 107 138 90 pint:PI0644|3end_dnaJ_protein_586569..586719_POSITIVE 271 146 103 132 89 pint:PI0494|3end_hypothetical_protein_455170..455320_POSITIVE 271 99 61 151 107 pint:PI0173|3end_hypothetical_protein_165558..165708_POSITIVE 270 147 102 143 99 pint:PI2175|3end_RNA_polymerase_sigma-54_2116526..2116676_POSITIVE 267 132 102 148 118 pint:PI1584|3end_A/G-specific_adenine_glycosylase_1512958..1513108_POSITIVE 265 145 102 88 33 pint:PI1863|3end_phosphoribosylformylglycinamidine_synthase_1810392..1810542_POSITIVE 265 139 101 149 116 pint:PI0830|3end_conserved_hypothetical_protein_768206..768356_POSITIVE 260 146 102 55 4 pint:PI1786|3end_hypothetical_protein_1718380..1718530_POSITIVE 257 150 101 119 73 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE